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Exact(10)
The fragments are edited and superimposed using common residues, full atomic models are scored using RAGTOP's knowledge-based potential, and geometries of top scoring models is optimized.
Models are scored based on the entire training set and not only on the drawn sub-sample used for their construction.
Next, the all-atom models are scored by our in-house implementation of DFIRE-AA [35].
The predicted models are scored with a statistical potential and an all-atom force field.
These optional models are scored separately.
These optional models are scored separately; each contains four items, scored 1-5.
Similar(50)
In many cases the predictive models are scoring systems, in which the predictor variables are usually selected and scored subjectively by expert consensus or objectively using statistical methods.
In many cases, these models are scoring systems in which the predictor variables are usually selected and scored subjectively by expert consensus or objectively using statistical methods [ 7, 8].
Initial models were scored for energy content and sterical correctness and the best model further optimized using GROMACS molecular dynamics simulations [44] was used.
Transcription of the annotated gene models was scored using a previously described method [24] and the results are shown in Figure S1.
All models were scored for energy and sterical correctness using the ANOLEA [45], VERIFY_3D and ERRAT (http://nihserver.mbi.ucla.edu) online servers.
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